POC Conf. Call 7-23-13 - Revision history

Cooperl at 17:54, 23 October 2013

2013-10-23T17:54:27Z

Cooperl: /* Release #20 */

2013-08-01T18:24:01Z

Release #20

Cooperl: /* Next meeting scheduled for Tuesday, July 30th, 2013 at 10am Pacific/1pm Eastern */

2013-08-01T18:21:23Z

Next meeting scheduled for Tuesday, July 30th, 2013 at 10am Pacific/1pm Eastern

Cooperl: /* Botanical Society Meeting July 27-31st New Orleans */

2013-07-25T18:52:57Z

Botanical Society Meeting July 27-31st New Orleans

Cooperl: /* New Annotation Files: Rice and Cotton */

2013-07-24T17:54:00Z

New Annotation Files: Rice and Cotton

Cooperl: /* New Annotation Files: Rice and Cotton */

2013-07-24T16:40:21Z

New Annotation Files: Rice and Cotton

Cooperl: /* New Annotation Files: Rice and Cotton */

2013-07-24T00:00:44Z

New Annotation Files: Rice and Cotton

Cooperl: /* floral organ formation stage (new PO:0025585) */

2013-07-23T20:49:59Z

floral organ formation stage (new PO:0025585)

Cooperl: /* Flower development stage (PO:0021004) and subclasses */

2013-07-23T20:48:44Z

Flower development stage (PO:0021004) and subclasses

Cooperl: /* flower meristem transition stage (new PO:0025588) */

2013-07-23T20:43:41Z

flower meristem transition stage (new PO:0025588)

← Older revision		Revision as of 17:54, 23 October 2013
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−	POC meeting, Webex Conference Call; Date: Tuesday July 23rd, 2013 10am ~~PST~~/1pm ~~EST~~	+	POC meeting, Webex Conference Call; Date: Tuesday July 23rd, 2013 10am PDT/1pm EDT

	In attendance: ''Laurel Cooper (OSU), Justin Elser (OSU), Marie Alejandra Gandolfo (Cornell), Brian Atkinson (OSU), Barry Smith''		In attendance: ''Laurel Cooper (OSU), Justin Elser (OSU), Marie Alejandra Gandolfo (Cornell), Brian Atkinson (OSU), Barry Smith''

@@ Line 16: / Line 16: @@
 * Roughly 50 new terms and about 30 renamed terms
 * See: [[Details_of_Changes_to_Release_20]]
 ==New Annotation Files: Rice and Cotton==

← Older revision		Revision as of 18:21, 1 August 2013
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	- BA will also present a poster on the PO: [http://www.botanyconference.org/engine/search/index.php?func=detail&aid=1337 Plant Ontology, a controlled and structured plant vocabulary for all botanical disciplines].		- BA will also present a poster on the PO: [http://www.botanyconference.org/engine/search/index.php?func=detail&aid=1337 Plant Ontology, a controlled and structured plant vocabulary for all botanical disciplines].

−	=Next meeting scheduled for Tuesday, ~~July 30th~~, 2013 at 10am Pacific/1pm Eastern=	+	=Next meeting scheduled for Tuesday, Aug 20th, 2013 at 10am Pacific/1pm Eastern=

@@ Line 175: / Line 175: @@
 - BA will present a talk on his work: [http://www.botanyconference.org/engine/search/index.php?func=detail&aid=449 New evidence for the radiation of basal Cupressaceae]
-- BA will also present a poster on the PO: details TBA
+- BA will also present a poster on the PO: [http://www.botanyconference.org/engine/search/index.php?func=detail&aid=1337 Plant Ontology, a controlled and structured plant vocabulary for all botanical disciplines].
 =Next meeting scheduled for Tuesday, July 30th, 2013 at 10am Pacific/1pm Eastern=

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 * Cotton ESTs from a suppression subtractive hybridization study looking at cell wall biosynthesis in cotton suspension culture, derived from embryogenic callus tissue.
-* Currently annotated to seed trichomes (PO:0004511) and seed trichome secondary wall biosynthesis stage (PO:0025372), but should be plant protoplasts (PO:0000006) and maybe the associated cell wall biosynthesis stage from GO.
+* Currently annotated to seed trichomes (PO:0004511) and seed trichome secondary wall biosynthesis stage (PO:0025372), but should be plant protoplasts (PO:0000006) and the associated [http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0009832 plant-type cell wall biogenesis (GO:0009832)] process term from GO.
 * Reference: [http://xb.oxfordjournals.org/content/59/13/3661.long Expression profile analysis of genes involved in cell wall regeneration during protoplast culture in cotton by suppression subtractive hybridization and macroarray].

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 ==floral organ formation stage (new PO:0025585)==
 * [https://sourceforge.net/p/obo/plant-ontology-po-term-requests/550/ floral organ formation stage (new PO:0025585)]: A flower development stage (PO:0007615) which begins with the floral organ meristem development stage (PO:0007601) and ends with the onset of the flowering stage (PO:0025586).
 Children of floral organ formation stage (new PO:0025585):
@@ Line 76: / Line 78: @@
 ** [https://sourceforge.net/p/obo/plant-ontology-po-term-requests/546/ floral organ differentiation stage (PO:0007600)]: A floral organ formation stage (PO:0025585) which begins with the differentiation of floral organs (PO:0025395) from the floral organ primordium (PO:0025477) and ends with the onset of the anthesis stage (PO:0007616).
 ==flowering stage (new PO:0025586)==

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 Revised definitions for flower development stages:
 *''' Flower development stage (PO:0021004):''' A reproductive shoot system development stage (PO:0025530) which begins with the onset of the floral organ meristem development stage (PO:0007601) and ends after the post anthesis stage (PO:0007617).
 '''New and revised child terms:'''
@@ Line 78: / Line 81: @@
 * [https://sourceforge.net/p/obo/plant-ontology-po-term-requests/551/ flowering stage (PO:0025586)]: A flower development stage (PO:0007615) during which a single flower (PO:0009046) participates in the process of flowering (GO:0010228). ''This needs to be revised...''
-** [https://sourceforge.net/p/obo/plant-ontology-po-term-requests/551/ anthesis stage (PO:0007616)]: A flower development stage (PO:0007615) that begins when pollen (PO:0025281) is presented and/or the stigma (PO:0009073) is receptive and ends with pollination (GO:0009856).  ''This needs to be revised...'';  ''what is "pollen is presented"?  pollen is released by anther dehiscecence; Refer to: anther dehiscence (GO:0009901): The dehiscence of an anther to release the pollen grains contained within it.;
+** [https://sourceforge.net/p/obo/plant-ontology-po-term-requests/551/ anthesis stage (PO:0007616)]: A flower development stage (PO:0007615) that begins when pollen (PO:0025281) is presented and/or the stigma (PO:0009073) is receptive and ends with pollination (GO:0009856).  ''This needs to be revised...'';
-''A flowering stage (PO:ID) that begins with anther dehiscence (GO:0009901) and/or the stigma (PO:0009073) is receptive and ends with pollination (GO:0009856).
+''Proposed revised def'n: A flowering stage (PO:ID) that begins with anther dehiscence (GO:0009901) and/or the stigma (PO:0009073) is receptive and ends with pollination (GO:0009856).
 ''just call it flowering??''
@@ Line 86: / Line 93: @@
 ** [https://sourceforge.net/p/obo/plant-ontology-po-term-requests/551/ post anthesis stage (PO:0007617)]: A flower development stage (PO:0007615) that occurs after the anthesis stage (PO:0007616) and lasts until flower morphogenesis is complete (GO:0048439). ''This needs to be revised...''
 ===References for Anthesis:===

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 '''New and revised child terms:'''
 ==flower meristem transition stage (new PO:0025588)==
 * [https://sourceforge.net/p/obo/plant-ontology-po-term-requests/554/ flower meristem transition stage (new PO:0025588)]: A flower development stage (PO:0007615) which begins with the transition of a portion of meristem tissue (PO:0009013) to a flower meristem (PO:0000229) and ends with the onset of the floral organ formation stage (PO:0025585).
 ==floral organ formation stage (new PO:0025585)==